MolNFT v1 · #123654 · protein

Crystal structure of 10E8 ghv-maturel antigen-binding fragment.

5JR1 · 10E8 heavy chain: “Crystal structure of 10E8 ghv-maturel antigen-binding fragment.”. X-ray diffraction, 1 ligand (ZN), 5 pockets (best druggability 0.70). MolNFT v1 #123654 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 5JR1
Type: protein
Length: 438 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 10E8 heavy chain; 10E8 mature light chain
Ligands: ZN
Pockets: 5 · best druggability 0.70

Structure

x-ray diffraction · 2 distinct chains · 9% helix, 52% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	10E8 heavy chain	protein	227	9% helix, 52% strand	—
L	10E8 mature light chain	protein	211	9% helix, 51% strand	—

Ligands and binding sites

ZN · Zinc ion · metal · 2 copies · chains H, L

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	834	0.70	0.76	67	empty
2	69	0.44	0.82	18	empty
3	83	0.38	0.77	25	empty
4	72	0.32	0.75	15	empty
5	56	0.28	0.74	21	empty

Interfaces

1 interface between chains.

H–L · 2032 Å² buried · 22 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

5JR1 · Crystal structure of 10E8 gHV-matureL antigen-binding fragment. · the same entry in another collection · chain H against H, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 5JR1 · PDBe 5JR1

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